PXD052017
PXD052017 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Toward a comprehensive proteomic draft map of the West Virginia Ramp (Allium tricoccum) |
| Description | Samples of the North American wild ramp (wild leak) Allium tricoccum were harvested during the vegetative and dormant stages of the life cycle. The vegatative plant was cut into root, bulb, stem and leaf sections and homogenized in a bead mill in a solution of 35/35/30 LCMS grade acetonitrile, methanol, and water respectively. Centrifugation at 13,000 x g at 5 minutes was used to separate the soluble metabolome and the solid material (protein, etc.,). The soluble solution was dried by speedvac and resuspended in 5 percent acetonitrile in water for metabolomic analysis on a Q Exactive system using a 20 minute DDA method. Metabolites were analyzed in Compound Discverer 3.1. The same process was performed for dormant ramps with the exception that only bulb and root material could be obtained. The precipitate for all samples was solubilized in 1x S-trap lysis buffer and prepared with the S-Trap mini spin column kits following all vendor protocols, with the exception that reduction and alkylation were not performed. The resulting peptides were quantified and 400ng of material was analyzed using a DDA PASEF method on an EvoSep One system. |
| HostingRepository | MassIVE |
| AnnounceDate | 2024-05-07 |
| AnnouncementXML | Submission_2024-05-07_04:33:07.093.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | ben |
| SpeciesList | scientific name: Allium tricoccum; common name: wild leek; NCBI TaxID: 138334; |
| ModificationList | Oxidation |
| Instrument | timsTOF fleX |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2024-05-06 07:08:43 | ID requested | |
| ⏵ 1 | 2024-05-07 04:33:07 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: Allium tricoccum, Metaproteomics, West Virginia Wild Ramp, Wild leak |
Contact List
| Benjamin C Orsburn | |
|---|---|
| contact affiliation | Johns Hopkins |
| contact email | borsbur1@jhmi.edu |
| lab head | |
| ben | |
| contact affiliation | The Johns Hopkins School of Medicine |
| contact email | ben_orsburn3@hotmail.com |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/v07/MSV000094686/ |
to receive all new ProteomeXchange dataset release announcements!
